|
Status |
Public on Dec 01, 2019 |
Title |
Hi-C: gfp RNAi rep2 |
Sample type |
SRA |
|
|
Source name |
Hi-C: gfp RNAi
|
Organism |
Drosophila melanogaster |
Characteristics |
cell line background: S2 genotype/variation: gfp RNAi primary restriction enzyme: HindIII
|
Treatment protocol |
RNAi treatment for 6 days at 25C
|
Growth protocol |
S2 cells were maintained at 25C in Gibco Schneider's media supplemnted with 10% heat-inactivated FBS and 1.4X antibiotic-antimycotic
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Hi-C was carried out as describe by Rao et al (2014) with few modifications Hi-C
|
|
|
Library strategy |
OTHER |
Library source |
genomic |
Library selection |
other |
Instrument model |
Illumina HiSeq 2500 |
|
|
Description |
WJPool1_3_CTTGTA_L007 GFP_replicate_2_S3
|
Data processing |
Library strategy: Hi-C Each read pair (MAPQ ≥ 15) was mapped and proccessed for visualization using the HiC-Pro pipeline. Genome_build: dm6 Supplementary_files_format_and_content: hic files contain matrices that can be visualized using juicebox
|
|
|
Submission date |
May 01, 2019 |
Last update date |
Dec 01, 2019 |
Contact name |
Erica Larschan |
E-mail(s) |
Erica_Larschan@brown.edu
|
Organization name |
Brown University
|
Street address |
185 Meeting St.
|
City |
Providence |
ZIP/Postal code |
02912 |
Country |
USA |
|
|
Platform ID |
GPL17275 |
Series (2) |
GSE130545 |
The zinc finger protein CLAMP promotes long-range chromatin interactions that mediate dosage compensation of the Drosophila male X-chromosome [Hi-C seq] |
GSE130546 |
The zinc finger protein CLAMP promotes long-range chromatin interactions that mediate dosage compensation of the Drosophila male X-chromosome |
|
Relations |
BioSample |
SAMN11547192 |
SRA |
SRX5773235 |